Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 146 of 310
Found at i:47658123 original size:79 final size:80
Alignment explanation
Indices: 47657880--47658138 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
47657870 AAGTGAATAT
* * * * * *
47657880 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
47657944 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
47657960 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
47658025 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
47658040 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
47658104 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
47658119 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
47658139 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:47665877 original size:40 final size:40
Alignment explanation
Indices: 47665794--47666056 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
47665784 TTGAATGCTG
* * * * * *
47665794 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
47665834 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
47665874 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
47665914 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
47665954 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47665994 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
47666033 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
47666057 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:47666076 original size:79 final size:80
Alignment explanation
Indices: 47665833--47666091 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
47665823 AAGTGAATAT
* * * * * *
47665833 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
47665897 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
47665913 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
47665978 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
47665993 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
47666057 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
47666072 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
47666092 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:47672384 original size:38 final size:39
Alignment explanation
Indices: 47672293--47672384 Score: 116
Period size: 40 Copynumber: 2.4 Consensus size: 39
47672283 AGGTACCTTT
* *
47672293 TGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA-ACA
*
47672333 TGGTGTGTAGGGTT-GAGTGGGTCGATTTTATCCCC-ACA
1 TGGTGTGTAGGGTTGGA-TGGGTCGATTATATCCCCAACA
*
47672371 TGGTGTGTTGGGTT
1 TGGTGTGTAGGGTT
47672385 AGTCGGAGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
38 15 0.32
39 2 0.04
40 30 0.64
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCAACA
Found at i:47678371 original size:13 final size:13
Alignment explanation
Indices: 47678355--47678389 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
47678345 TTCTTTTTCC
*
47678355 TTCTTCTCTATTT
1 TTCTTCTCCATTT
47678368 TTCTTCTCCATTT
1 TTCTTCTCCATTT
47678381 TTCTTCTCC
1 TTCTTCTCC
47678390 TTTGATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTCCATTT
Found at i:47678373 original size:16 final size:16
Alignment explanation
Indices: 47678334--47678387 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 16
47678324 GCCGAAATTC
* *
47678334 TTTTCTT-TTCTTTCT
1 TTTTCTTCTTCTCTAT
47678349 TTTTCCTTCTTCTCTAT
1 TTTT-CTTCTTCTCTAT
47678366 TTTTCTTC-TC-C-AT
1 TTTTCTTCTTCTCTAT
47678379 TTTTCTTCT
1 TTTTCTTCT
47678388 CCTTTGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 10 0.29
14 1 0.03
15 6 0.18
16 7 0.21
17 10 0.29
ACGTcount: A:0.04, C:0.26, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTCTTCTTCTCTAT
Found at i:47681734 original size:3 final size:3
Alignment explanation
Indices: 47681726--47681775 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
47681716 ATAACAAAGA
47681726 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
47681774 TA
1 TA
47681776 GGGTTAAATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:47683972 original size:7 final size:8
Alignment explanation
Indices: 47683956--47683983 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
47683946 TTTCTTACTC
47683956 TTTTCTTT
1 TTTTCTTT
47683964 TTTTCTTT
1 TTTTCTTT
47683972 TTTTCTTT
1 TTTTCTTT
47683980 TTTT
1 TTTT
47683984 ATTCTCTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTCTTT
Found at i:47687482 original size:21 final size:22
Alignment explanation
Indices: 47687458--47687498 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47687448 ATAATTTTTA
47687458 GAAAA-TAAATAATAAAAAAGT
1 GAAAATTAAATAATAAAAAAGT
47687479 GAAAATTAAATAATAAAAAA
1 GAAAATTAAATAATAAAAAA
47687499 TTAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (22 bp):
GAAAATTAAATAATAAAAAAGT
Found at i:47687505 original size:22 final size:21
Alignment explanation
Indices: 47687459--47687505 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
47687449 TAATTTTTAG
47687459 AAAATAAATAATAAAAAAGTGA
1 AAAATAAATAATAAAAAAGT-A
* *
47687481 AAATTAAATAATAAAAAATTA
1 AAAATAAATAATAAAAAAGTA
47687502 AAAA
1 AAAA
47687506 CAATTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.21
Consensus pattern (21 bp):
AAAATAAATAATAAAAAAGTA
Found at i:47693211 original size:4 final size:4
Alignment explanation
Indices: 47693202--47693228 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47693192 ATCCTTTTCT
47693202 CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CAT
47693229 GCATGGATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:47695389 original size:22 final size:23
Alignment explanation
Indices: 47695354--47695400 Score: 87
Period size: 22 Copynumber: 2.1 Consensus size: 23
47695344 CTTGTGATCT
47695354 TTTATCTTTATAAATTAGCATTA
1 TTTATCTTTATAAATTAGCATTA
47695377 TTTATC-TTATAAATTAGCATTA
1 TTTATCTTTATAAATTAGCATTA
47695399 TT
1 TT
47695401 AGAAGGAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.53
Consensus pattern (23 bp):
TTTATCTTTATAAATTAGCATTA
Found at i:47698025 original size:14 final size:13
Alignment explanation
Indices: 47697985--47698028 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 13
47697975 TATAATGATA
47697985 TTATTGTATGTTAT
1 TTATTGTAT-TTAT
*
47697999 TAATTGTA-TTAT
1 TTATTGTATTTAT
47698011 TTATTGTATTATAT
1 TTATTGTATT-TAT
47698025 TTAT
1 TTAT
47698029 GTGTTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 11 0.42
13 1 0.04
14 14 0.54
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (13 bp):
TTATTGTATTTAT
Found at i:47701116 original size:24 final size:24
Alignment explanation
Indices: 47701089--47701134 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
47701079 TATACATATT
*
47701089 AATATTATTAATTAAT-AAATTTTA
1 AATAATATT-ATTAATGAAATTTTA
*
47701113 AATAATATTTTTAATGAAATTT
1 AATAATATTATTAATGAAATTT
47701135 GTTAATATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATAATATTATTAATGAAATTTTA
Found at i:47704939 original size:21 final size:21
Alignment explanation
Indices: 47704900--47704938 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47704890 GGACTAAATC
47704900 GAAAACCTTAGAAAGTTTTGG
1 GAAAACCTTAGAAAGTTTTGG
*
47704921 GAAAA-CTTAGAAAATTTT
1 GAAAACCTTAGAAAGTTTT
47704939 TCCATGGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (21 bp):
GAAAACCTTAGAAAGTTTTGG
Found at i:47708857 original size:84 final size:83
Alignment explanation
Indices: 47708695--47708849 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 83
47708685 GATATTCGGG
* * *
47708695 CTTTAAGCCTAGCAAGCATTGTGCTAGTGAATGTAATCGGGCTTTATGCCTAGCAGGCTTATTGC
1 CTTTAAGCCTAGCAAGCATTGAGCTAGTG-ATGTAATCAGGCTTTATACCTAGCAGGCTTATTGC
47708760 CGGCGAATATAAAATTAGA
65 CGGCGAATATAAAATTAGA
* * *
47708779 CTTTAAGTCTAGCAGGCCTTGAGCTAGTG-TGTAATTCAGGC-TTATACCTAGCAGGCTT-TATG
1 CTTTAAGCCTAGCAAGCATTGAGCTAGTGATGTAA-TCAGGCTTTATACCTAGCAGGCTTAT-TG
*
47708841 CCGGTGAAT
64 CCGGCGAAT
47708850 TATTAAAAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
81 1 0.02
82 31 0.50
83 5 0.08
84 25 0.40
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (83 bp):
CTTTAAGCCTAGCAAGCATTGAGCTAGTGATGTAATCAGGCTTTATACCTAGCAGGCTTATTGCC
GGCGAATATAAAATTAGA
Found at i:47711327 original size:40 final size:40
Alignment explanation
Indices: 47711273--47711620 Score: 642
Period size: 40 Copynumber: 8.7 Consensus size: 40
47711263 GAGCATTGGA
*
47711273 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
47711313 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
47711353 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
47711393 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
47711433 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
47711473 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
47711513 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
47711553 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
47711593 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
47711621 ATGTGTTTGC
Statistics
Matches: 300, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 300 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:47713306 original size:22 final size:22
Alignment explanation
Indices: 47713280--47713322 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
47713270 GATGCTTTAA
*
47713280 TTGTTAAAGATTTATCTAATTC
1 TTGTTAAAGATTGATCTAATTC
47713302 TTGTTAAAGATTGATCTAATT
1 TTGTTAAAGATTGATCTAATT
47713323 TGAAACTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (22 bp):
TTGTTAAAGATTGATCTAATTC
Found at i:47714162 original size:211 final size:211
Alignment explanation
Indices: 47713798--47714219 Score: 808
Period size: 211 Copynumber: 2.0 Consensus size: 211
47713788 TGTTGCTTTG
* *
47713798 GATATGTTTAAGATTGAGTTTTGAGTAGTGATTTGGTTTGTGATGTAATGTTTTGATTTGTATAT
1 GATATGTTTAAGATTGAGTTTTGAGTAGTGATTTGGTTTGTGATATAATGTTTTGATTTGTATAC
47713863 GAATTTGCCATGTTGTAATTGCCTATGTGTGTTTCGAAATGGCATGAAGTGTGGTATTTAGGTAT
66 GAATTTGCCATGTTGTAATTGCCTATGTGTGTTTCGAAATGGCATGAAGTGTGGTATTTAGGTAT
47713928 GCTTGTGGAGGGTGAGAAATGTGGCTTTAACCAAGCCTATTTTCATTCAACACGGCTGAGCACAC
131 GCTTGTGGAGGGTGAGAAATGTGGCTTTAACCAAGCCTATTTTCATTCAACACGGCTGAGCACAC
47713993 GGGCGTGTGGCTTGAC
196 GGGCGTGTGGCTTGAC
47714009 GATATGTTTAAGATTGAGTTTTGAGTAGTGATTTGGTTTGTGATATAATGTTTTGATTTGTATAC
1 GATATGTTTAAGATTGAGTTTTGAGTAGTGATTTGGTTTGTGATATAATGTTTTGATTTGTATAC
47714074 GAATTTGCCATGTTGTAATTGCCTATGTGTGTTTCGAAATGGCATGAAGTGTGGTATTTAGGTAT
66 GAATTTGCCATGTTGTAATTGCCTATGTGTGTTTCGAAATGGCATGAAGTGTGGTATTTAGGTAT
* *
47714139 GCTTGTGGAGGGTGAGAAATGTGGCTTTAACCAAGCCTATTTTCATTCAACATGGCTGAGTACAC
131 GCTTGTGGAGGGTGAGAAATGTGGCTTTAACCAAGCCTATTTTCATTCAACACGGCTGAGCACAC
47714204 GGGCGTGTGGCTTGAC
196 GGGCGTGTGGCTTGAC
47714220 CGTGTGAGTC
Statistics
Matches: 207, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
211 207 1.00
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (211 bp):
GATATGTTTAAGATTGAGTTTTGAGTAGTGATTTGGTTTGTGATATAATGTTTTGATTTGTATAC
GAATTTGCCATGTTGTAATTGCCTATGTGTGTTTCGAAATGGCATGAAGTGTGGTATTTAGGTAT
GCTTGTGGAGGGTGAGAAATGTGGCTTTAACCAAGCCTATTTTCATTCAACACGGCTGAGCACAC
GGGCGTGTGGCTTGAC
Found at i:47719139 original size:37 final size:37
Alignment explanation
Indices: 47719089--47719176 Score: 158
Period size: 37 Copynumber: 2.4 Consensus size: 37
47719079 TCGGTTGAAC
* *
47719089 TAGCTCTTATGAGCATCTGGTGTGTTATCGGGTGGAT
1 TAGCTCTTATGAGCATCTAGCGTGTTATCGGGTGGAT
47719126 TAGCTCTTATGAGCATCTAGCGTGTTATCGGGTGGAT
1 TAGCTCTTATGAGCATCTAGCGTGTTATCGGGTGGAT
47719163 TAGCTCTTATGAGC
1 TAGCTCTTATGAGC
47719177 GATTGGCATG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.18, C:0.16, G:0.30, T:0.36
Consensus pattern (37 bp):
TAGCTCTTATGAGCATCTAGCGTGTTATCGGGTGGAT
Found at i:47721041 original size:13 final size:13
Alignment explanation
Indices: 47721023--47721083 Score: 59
Period size: 13 Copynumber: 4.5 Consensus size: 13
47721013 CATTGGGTGG
47721023 AAAATGAATATAT
1 AAAATGAATATAT
*
47721036 AAAATGATTATAT
1 AAAATGAATATAT
* * **
47721049 GAATTGGTTATAT
1 AAAATGAATATAT
47721062 GGAAAATGAATATAT
1 --AAAATGAATATAT
47721077 AAAATGA
1 AAAATGA
47721084 TAATATGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
13 29 0.76
15 9 0.24
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (13 bp):
AAAATGAATATAT
Found at i:47721065 original size:41 final size:41
Alignment explanation
Indices: 47721020--47721144 Score: 191
Period size: 41 Copynumber: 3.1 Consensus size: 41
47721010 GTTCATTGGG
*
47721020 TGGAAAATGAATATATAAAATGATTATATGAATTGGTTATA
1 TGGAAAATGAATATATAAAATGATTATATGAATCGGTTATA
* **
47721061 TGGAAAATGAATATATAAAATGATAATATGAATCAATTATA
1 TGGAAAATGAATATATAAAATGATTATATGAATCGGTTATA
*
47721102 TGG-AAATG-ATATATAGAATGATTATATGAATCGGTTATA
1 TGGAAAATGAATATATAAAATGATTATATGAATCGGTTATA
47721141 TGGA
1 TGGA
47721145 TAGATATTTA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
39 30 0.40
40 5 0.07
41 40 0.53
ACGTcount: A:0.46, C:0.02, G:0.18, T:0.34
Consensus pattern (41 bp):
TGGAAAATGAATATATAAAATGATTATATGAATCGGTTATA
Found at i:47721114 original size:13 final size:13
Alignment explanation
Indices: 47721038--47721144 Score: 60
Period size: 13 Copynumber: 8.1 Consensus size: 13
47721028 GAATATATAA
47721038 AATGATTATAT-G
1 AATGATTATATGG
*
47721050 AATTGGTTATATGG
1 AA-TGATTATATGG
* **
47721064 AAAATGAATATATAA
1 --AATGATTATATGG
*
47721079 AATGATAATAT-G
1 AATGATTATATGG
*
47721091 AATCAATTATATGG
1 AAT-GATTATATGG
*
47721105 AAATGA-TATATAG
1 -AATGATTATATGG
47721118 AATGATTATAT-G
1 AATGATTATATGG
*
47721130 AATCGGTTATATGG
1 AAT-GATTATATGG
47721144 A
1 A
47721145 TAGATATTTA
Statistics
Matches: 72, Mismatches: 13, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
12 14 0.19
13 41 0.57
14 5 0.07
15 10 0.14
16 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.36
Consensus pattern (13 bp):
AATGATTATATGG
Found at i:47721115 original size:26 final size:27
Alignment explanation
Indices: 47721078--47721129 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
47721068 TGAATATATA
47721078 AAATGATAATAT-GAATCAATTATATGG
1 AAATGATAATATAGAAT-AATTATATGG
*
47721105 AAATGAT-ATATAGAATGATTATATG
1 AAATGATAATATAGAATAATTATATG
47721130 AATCGGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.48, C:0.02, G:0.15, T:0.35
Consensus pattern (27 bp):
AAATGATAATATAGAATAATTATATGG
Found at i:47728531 original size:27 final size:28
Alignment explanation
Indices: 47728469--47728531 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 28
47728459 GTTTTAACCC
*
47728469 ATTAAAA-TTTTAACTATTTTACCCTTG
1 ATTAAAATTTTTAACAATTTTACCCTTG
* *
47728496 A-TAACATTTTTTACAATTTTACCCTT-
1 ATTAAAATTTTTAACAATTTTACCCTTG
47728522 ATTAAAATTT
1 ATTAAAATTT
47728532 CTATAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 5 0.17
27 25 0.83
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTAAAATTTTTAACAATTTTACCCTTG
Found at i:47731364 original size:19 final size:19
Alignment explanation
Indices: 47731330--47731368 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
47731320 GATTTCGTAC
*
47731330 TTTGGCCCATTTTCTCTGTT
1 TTTGGCCCAGTTTCTC-GTT
47731350 TTTGGCCC-GTTTCTCGTT
1 TTTGGCCCAGTTTCTCGTT
47731368 T
1 T
47731369 CTTTCGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 8 0.44
ACGTcount: A:0.03, C:0.26, G:0.18, T:0.54
Consensus pattern (19 bp):
TTTGGCCCAGTTTCTCGTT
Found at i:47739559 original size:414 final size:414
Alignment explanation
Indices: 47738789--47739618 Score: 1633
Period size: 414 Copynumber: 2.0 Consensus size: 414
47738779 TCTTGAAAAT
47738789 TTCAGCAATGAAGGAAGAAGATGGACACCAATTTTGACTCATTTTTCCTTTTTTATTCTTTTAAT
1 TTCAGCAATGAAGGAAGAAGATGGACACCAATTTTGACTCATTTTTCCTTTTTTATTCTTTTAAT
47738854 TACCAAATGACCAAAATGCCCTTAGGGTTTCTCTTTTACATTTTTCCTATGCATGTCCATTTTTG
66 TACCAAATGACCAAAATGCCCTTAGGGTTTCTCTTTTACATTTTTCCTATGCATGTCCATTTTTG
47738919 TCCAAAATTTTAGAAATTGGTCAAATTGCTAATTAGGACCCTCCTCTAATTCAATATCTAATACA
131 TCCAAAATTTTAGAAATTGGTCAAATTGCTAATTAGGACCCTCCTCTAATTCAATATCTAATACA
47738984 ATTTCATGCTTAAAGCTTCTACAATGCAAGTTTTGTACTTTATTCAGTTTGGTCCATAAAATGCA
196 ATTTCATGCTTAAAGCTTCTACAATGCAAGTTTTGTACTTTATTCAGTTTGGTCCATAAAATGCA
* *
47739049 ATTAGACATTTTATGCATAGAATTTCTTCATGAAACTTTCACACAAGCATGCATTCATAATATAT
261 ATTAGACATTTTATGCATAGAATTTCTTCATGAAACTTTCACACAAGCATGCAGTCATAAGATAT
*
47739114 AAACTTCATGAGGATCATAAAATAATTATTTCTATCTTCGAATTTGTGGTCTCGAAACCACTATT
326 AAACGTCATGAGGATCATAAAATAATTATTTCTATCTTCGAATTTGTGGTCTCGAAACCACTATT
47739179 CCGACTAGGCCCTAATTCGGGATG
391 CCGACTAGGCCCTAATTCGGGATG
47739203 TTCAGCAATGAAGGAAGAAGATGGACACCAATTTTGACTCATTTTTCCTTTTTTATTCTTTTAAT
1 TTCAGCAATGAAGGAAGAAGATGGACACCAATTTTGACTCATTTTTCCTTTTTTATTCTTTTAAT
47739268 TACCAAATGACCAAAATGCCCTTAGGGTTTCTCTTTTACATTTTTCCTATGCATGTCCATTTTTG
66 TACCAAATGACCAAAATGCCCTTAGGGTTTCTCTTTTACATTTTTCCTATGCATGTCCATTTTTG
47739333 TCCAAAATTTTAGAAATTGGTCAAATTGCTAATTAGGACCCTCCTCTAATTCAATATCTAATACA
131 TCCAAAATTTTAGAAATTGGTCAAATTGCTAATTAGGACCCTCCTCTAATTCAATATCTAATACA
47739398 ATTTCATGCTTAAAGCTTCTACAATGCAAGTTTTGTACTTTATTCAGTTTGGTCCATAAAATGCA
196 ATTTCATGCTTAAAGCTTCTACAATGCAAGTTTTGTACTTTATTCAGTTTGGTCCATAAAATGCA
47739463 ATTAGACATTTTATGCATAGAATTTCTTCATGAAACTTTCACACAAGCATGCAGTCATAAGATAT
261 ATTAGACATTTTATGCATAGAATTTCTTCATGAAACTTTCACACAAGCATGCAGTCATAAGATAT
47739528 AAACGTCATGAGGATCATAAAATAATTATTTCTATCTTCGAATTTGTGGTCTCGAAACCACTATT
326 AAACGTCATGAGGATCATAAAATAATTATTTCTATCTTCGAATTTGTGGTCTCGAAACCACTATT
47739593 CCGACTAGGCCCTAATTCGGGATG
391 CCGACTAGGCCCTAATTCGGGATG
47739617 TT
1 TT
47739619 ACATTGGATA
Statistics
Matches: 413, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
414 413 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (414 bp):
TTCAGCAATGAAGGAAGAAGATGGACACCAATTTTGACTCATTTTTCCTTTTTTATTCTTTTAAT
TACCAAATGACCAAAATGCCCTTAGGGTTTCTCTTTTACATTTTTCCTATGCATGTCCATTTTTG
TCCAAAATTTTAGAAATTGGTCAAATTGCTAATTAGGACCCTCCTCTAATTCAATATCTAATACA
ATTTCATGCTTAAAGCTTCTACAATGCAAGTTTTGTACTTTATTCAGTTTGGTCCATAAAATGCA
ATTAGACATTTTATGCATAGAATTTCTTCATGAAACTTTCACACAAGCATGCAGTCATAAGATAT
AAACGTCATGAGGATCATAAAATAATTATTTCTATCTTCGAATTTGTGGTCTCGAAACCACTATT
CCGACTAGGCCCTAATTCGGGATG
Found at i:47745572 original size:25 final size:26
Alignment explanation
Indices: 47745520--47745577 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 26
47745510 TATTTATTAT
47745520 TTTTAAAATTGACTTATATATTATTTA
1 TTTTAAAATTGA-TTATATATTATTTA
*
47745547 TTTTAAAATTG-TTTTATA-TATCTTA
1 TTTTAAAATTGATTATATATTAT-TTA
47745572 TTTTAA
1 TTTTAA
47745578 GCTCTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 3 0.10
25 15 0.52
27 11 0.38
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (26 bp):
TTTTAAAATTGATTATATATTATTTA
Found at i:47745769 original size:25 final size:25
Alignment explanation
Indices: 47745728--47745787 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 25
47745718 TGTAATATAG
* *
47745728 ATTTTAAAACTCTTTTA-CATTATTT
1 ATTTT-AAACTCCTTTAGCATTATTC
*
47745753 ATTTTAAACTCGCTTTATGTATTATTC
1 ATTTTAAACTC-CTTTA-GCATTATTC
47745780 ATTTTAAA
1 ATTTTAAA
47745788 TTGTTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 6 0.21
25 9 0.31
27 14 0.48
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (25 bp):
ATTTTAAACTCCTTTAGCATTATTC
Found at i:47749917 original size:23 final size:23
Alignment explanation
Indices: 47749891--47749937 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47749881 TATGCTTAAG
47749891 TAAAATTATAGATATGTGATGAT
1 TAAAATTATAGATATGTGATGAT
47749914 TAAAATTATAGATATGTGATGAT
1 TAAAATTATAGATATGTGATGAT
47749937 T
1 T
47749938 GATTGGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (23 bp):
TAAAATTATAGATATGTGATGAT
Found at i:47759013 original size:19 final size:19
Alignment explanation
Indices: 47758991--47759030 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47758981 TTTAATTTTT
47758991 AATTCCAATTTTATACATA
1 AATTCCAATTTTATACATA
** *
47759010 AATTCCTCTTTTATATATA
1 AATTCCAATTTTATACATA
47759029 AA
1 AA
47759031 AGATGTAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTCCAATTTTATACATA
Found at i:47763347 original size:336 final size:330
Alignment explanation
Indices: 47762729--47763370 Score: 840
Period size: 336 Copynumber: 1.9 Consensus size: 330
47762719 ATTGAGCCTA
* *
47762729 TTTTAGCAGTCAATGAATCAAGTAGGAAAAAGAAGTCAACAAATTAGAGAATACAAAAACACCGG
1 TTTTAGCAGTCAATGAATCAACTAGCAAAAAGAAGTCAACAAATTAGAGAATACAAAAACACCGG
* * *
47762794 TTCATATTTTAAACCATTAAATACAGATCTAACGCCGATTCTTTCATTAATCAAAATCCAGAAAA
66 TTCATATTTTAAACCATTAAATACAGATCTAACGCCAATTATTTCACTAATCAAAATCCAGAAAA
* * * * * *
47762859 TATAGAGAGAAGTGACGAAGCAACAAGAAATAGAAAAATAAACTAAAACAAGAAAGCGAAAAGAA
131 TACAGAGAGAAGCGAAGAAGCAACAAGAAATACAAAAATAAACTAAAACAAGAAAGCAAAAAAAA
* * *
47762924 TAATGCTTACGAATTTCGCTCGTCGAACTCGCACTCTTCAGTTAGGTGGAAAAGAATCCAATTAA
196 AAATGCTTACGAATTTCGCTCGTCGAACTCGCACTCTTCAGTTAGGTGGAAAAGAAACCAATGAA
* * **
47762989 GAAAATGAAAATTCTAAAATTCAAGAAAATGGAGAAGCAAAGAATCAGAATACTTATAATTGTAT
261 GAAAACGAAAAATCTAAAATTCAAGAAAATAAAGAAGCAAAGAATCAGAATACTTATAATTGTAT
47763054 ATCTG
326 ATCTG
* * * ** *
47763059 TTTTAGCGGTCAATTAATCAACTAGCAAAAAGAAGTCAAC-GATGTAGAGTGTAC-AAATCACCG
1 TTTTAGCAGTCAATGAATCAACTAGCAAAAAGAAGTCAACAAAT-TAGAGAATACAAAAACACCG
47763122 GTTCATATTTTAAACCATTAAATACAGATCTAACGCCAATTATTTCACTAATCAAAATGCAAATC
65 GTTCATATTTTAAACCATTAAATACAGATCTAACGCCAATTATTTCACTAATC---A---AAATC
* * * *
47763187 CAGAAAATACAGAGAGAAGCGAAGAAGCAATC-AGGAATACAAAATTCAACTAAAACAAGAAAGT
124 CAGAAAATACAGAGAGAAGCGAAGAAGCAA-CAAGAAATACAAAAATAAACTAAAACAAGAAAGC
*** * *
47763251 AAAGAAAAAAAATGCTTACGAATTTCGCTCGTCGAACTCTTGCTCTTCGGTTTGGTGGAAAAGAA
188 AAA-AAAAAAAATGCTTACGAATTTCGCTCGTCGAACTCGCACTCTTCAGTTAGGTGGAAAAGAA
* * * * *
47763316 ACTAATGATGAAAGCGAAAAATCTAAAATTCAGGAAAATAAAGAAGCAAGGAATC
252 ACCAATGAAGAAAACGAAAAATCTAAAATTCAAGAAAATAAAGAAGCAAAGAATC
47763371 TTCTCCAAGA
Statistics
Matches: 265, Mismatches: 38, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
329 60 0.23
330 44 0.17
332 1 0.00
335 61 0.23
336 99 0.37
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (330 bp):
TTTTAGCAGTCAATGAATCAACTAGCAAAAAGAAGTCAACAAATTAGAGAATACAAAAACACCGG
TTCATATTTTAAACCATTAAATACAGATCTAACGCCAATTATTTCACTAATCAAAATCCAGAAAA
TACAGAGAGAAGCGAAGAAGCAACAAGAAATACAAAAATAAACTAAAACAAGAAAGCAAAAAAAA
AAATGCTTACGAATTTCGCTCGTCGAACTCGCACTCTTCAGTTAGGTGGAAAAGAAACCAATGAA
GAAAACGAAAAATCTAAAATTCAAGAAAATAAAGAAGCAAAGAATCAGAATACTTATAATTGTAT
ATCTG
Found at i:47766893 original size:85 final size:85
Alignment explanation
Indices: 47766790--47766960 Score: 279
Period size: 85 Copynumber: 2.0 Consensus size: 85
47766780 TCTCATGCTA
* * *
47766790 ATTGTTCATTTGCCCTTTAAAATCCTTAAAAATTTCATCCTTAAATCATCACTTAATTTAATAAA
1 ATTGATCATTTGCCCTTTAAAATCCTTAAAAACTCCATCCTTAAATCATCACTTAATTTAATAAA
47766855 ATTGTGATTTAGTCCCTCAT
66 ATTGTGATTTAGTCCCTCAT
* * * *
47766875 ATTGATCATTTGCTCTTTATAATCCTTAAAAACTCCATCCTTGAATCATCATTTAATTTAATAAA
1 ATTGATCATTTGCCCTTTAAAATCCTTAAAAACTCCATCCTTAAATCATCACTTAATTTAATAAA
47766940 ATTGTGATTTAGTCCCTCAT
66 ATTGTGATTTAGTCCCTCAT
47766960 A
1 A
47766961 ATTCTTCATT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (85 bp):
ATTGATCATTTGCCCTTTAAAATCCTTAAAAACTCCATCCTTAAATCATCACTTAATTTAATAAA
ATTGTGATTTAGTCCCTCAT
Found at i:47768623 original size:30 final size:30
Alignment explanation
Indices: 47768589--47768656 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
47768579 TATTAAAATA
* *
47768589 AAGGGCTTTTATGAGTAAAAATCATAAGTT
1 AAGGGCTTTAATGAGTAAAAACCATAAGTT
47768619 AAGGGCTTTAATGAGTAAAAACCATAAGTT
1 AAGGGCTTTAATGAGTAAAAACCATAAGTT
47768649 AAGGGCTT
1 AAGGGCTT
47768657 ATTTAACTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (30 bp):
AAGGGCTTTAATGAGTAAAAACCATAAGTT
Found at i:47770678 original size:20 final size:19
Alignment explanation
Indices: 47770640--47770677 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47770630 CTATACTAAG
47770640 TAATGTTATTTTTAGAAAA
1 TAATGTTATTTTTAGAAAA
47770659 TAATGTTATTTTTAGAAAA
1 TAATGTTATTTTTAGAAAA
47770678 AAGCCATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (19 bp):
TAATGTTATTTTTAGAAAA
Found at i:47772582 original size:64 final size:65
Alignment explanation
Indices: 47772508--47772637 Score: 244
Period size: 64 Copynumber: 2.0 Consensus size: 65
47772498 ATGAAATACT
47772508 TAGTTCAATTAGGACCAGTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAA-TTTTTCAA
1 TAGTTCAATTAGGACCAGTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAATTTTTTCAA
*
47772572 TAGTTCAATTAGGACCATTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAATTTTTTCAA
1 TAGTTCAATTAGGACCAGTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAATTTTTTCAA
47772637 T
1 T
47772638 CTGTTTTGCA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 55 0.86
65 9 0.14
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (65 bp):
TAGTTCAATTAGGACCAGTTACCGTCTTTCTTCGTCTGTCAACTTGATGGTGGAAATTTTTTCAA
Found at i:47773923 original size:19 final size:19
Alignment explanation
Indices: 47773901--47773937 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
47773891 TATTTTTTTT
* *
47773901 TAAAATTTTCAAATATTTA
1 TAAAAATTTCAAAAATTTA
47773920 TAAAAATTTCAAAAATTT
1 TAAAAATTTCAAAAATTT
47773938 TATTTTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAAAATTTCAAAAATTTA
Found at i:47774757 original size:8 final size:8
Alignment explanation
Indices: 47774744--47774793 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
47774734 CAAACGTGAG
47774744 AAAGAAAA
1 AAAGAAAA
*
47774752 AAAGAAAG
1 AAAGAAAA
*
47774760 AAAGAAAG
1 AAAGAAAA
*
47774768 AAAGAAAG
1 AAAGAAAA
47774776 AAAGAAAGA
1 AAAGAAA-A
47774785 AATAGAAAA
1 AA-AGAAAA
47774794 GAGAAATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
8 30 0.79
9 3 0.08
10 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:47774759 original size:4 final size:4
Alignment explanation
Indices: 47774742--47774786 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
47774732 AGCAAACGTG
*
47774742 AGAA AGAA AAAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
47774787 TAGAAAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:47781388 original size:4 final size:4
Alignment explanation
Indices: 47781379--47781407 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47781369 AGCAAACGTG
47781379 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
47781408 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:47782235 original size:47 final size:47
Alignment explanation
Indices: 47782171--47782281 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
47782161 GACATTGAGT
* *
47782171 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
47782218 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
47782265 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
47782282 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:47785586 original size:79 final size:79
Alignment explanation
Indices: 47785448--47785599 Score: 218
Period size: 79 Copynumber: 1.9 Consensus size: 79
47785438 ACATTTATAA
* *
47785448 GTGTTCTATCATATAGCCTATACCCTCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
1 GTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
*
47785513 TGTAGTATATGTTT
66 TGCAGTATATGTTT
* * *
47785527 GTGTTCTATCAGATA-CCTTATACCATCCATGTTCTCAAATGCTAGTTAGGCC-AGCTGATGTTC
1 GTGTTCTATCAGATAGCC-TATACCATCCATGCTCTCAAACGCTAGTTAGACCGAG-TGATGTTC
47785590 AATGCAGTAT
64 AATGCAGTAT
47785600 GTATATATAT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
78 4 0.06
79 61 0.94
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.35
Consensus pattern (79 bp):
GTGTTCTATCAGATAGCCTATACCATCCATGCTCTCAAACGCTAGTTAGACCGAGTGATGTTCAA
TGCAGTATATGTTT
Found at i:47785882 original size:19 final size:17
Alignment explanation
Indices: 47785845--47785878 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47785835 AGTTTAGAAA
*
47785845 TGCTTTTTTCTCAAAAG
1 TGCTTTTTTCCCAAAAG
47785862 TGCTTTTTGTCCCAAAA
1 TGCTTTTT-TCCCAAAA
47785879 AGTGTTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.44
Consensus pattern (17 bp):
TGCTTTTTTCCCAAAAG
Found at i:47794255 original size:21 final size:22
Alignment explanation
Indices: 47794226--47794272 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47794216 CAGAAGGAGT
*
47794226 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
47794248 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
47794269 GAGT
1 GAGT
47794273 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:47797305 original size:14 final size:14
Alignment explanation
Indices: 47797283--47797312 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47797273 AATTTATTCA
*
47797283 TAATTTTAAAAATT
1 TAATCTTAAAAATT
47797297 TAATCTTAAAAATT
1 TAATCTTAAAAATT
47797311 TA
1 TA
47797313 CAAACAGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATCTTAAAAATT
Found at i:47800243 original size:112 final size:112
Alignment explanation
Indices: 47800041--47800243 Score: 289
Period size: 112 Copynumber: 1.8 Consensus size: 112
47800031 ATCTCAAACC
* * * *
47800041 TTAAATCTAAACTCGTAACCCCAAACTATTAAATCTTGAACTCATAACCCCAAATCTTTGAACTG
1 TTAAATCTAAACTCGTAACCCCAAACCATTAAATCTTAAACTCATAACCCCAAACCTTTGAACCG
47800106 TAACATAAACAATTGAACATCGAACCCTGAACCCAAATCATGAATTT
66 TAACATAAACAATTGAACATCGAACCCTGAACCCAAATCATGAATTT
* * * * *
47800153 TTAAATCTAAACTCGTAACCTCAAACCATTGAATCTTAAATTCATTACCCCAAACCTTTGACCCG
1 TTAAATCTAAACTCGTAACCCCAAACCATTAAATCTTAAACTCATAACCCCAAACCTTTGAACCG
* * * *
47800218 TAACCTGAACTATTGAACATTGAACC
66 TAACATAAACAATTGAACATCGAACC
47800244 TCAAATCTAA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
112 78 1.00
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.28
Consensus pattern (112 bp):
TTAAATCTAAACTCGTAACCCCAAACCATTAAATCTTAAACTCATAACCCCAAACCTTTGAACCG
TAACATAAACAATTGAACATCGAACCCTGAACCCAAATCATGAATTT
Found at i:47802045 original size:21 final size:21
Alignment explanation
Indices: 47802021--47802060 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
47802011 TCGGTAAAAA
*
47802021 AGTGAAAAAATGGAAAGAAGT
1 AGTGAAAAAATAGAAAGAAGT
*
47802042 AGTGGAAAAATAGAAAGAA
1 AGTGAAAAAATAGAAAGAA
47802061 AATAATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.28, T:0.12
Consensus pattern (21 bp):
AGTGAAAAAATAGAAAGAAGT
Found at i:47804885 original size:20 final size:20
Alignment explanation
Indices: 47804870--47804957 Score: 81
Period size: 20 Copynumber: 4.4 Consensus size: 20
47804860 AATTTTGCTT
47804870 AATTCTTAAAAATTTTAGTA
1 AATTCTTAAAAATTTTAGTA
*
47804890 AATTGTTAAAAATTTTAGTA
1 AATTCTTAAAAATTTTAGTA
* * *
47804910 AA-TCTATATAAATATTGGTA
1 AATTCT-TAAAAATTTTAGTA
* *
47804930 AA-TCGTTAAGAATATTAGTA
1 AATTC-TTAAAAATTTTAGTA
*
47804950 AAGTCTTA
1 AATTCTTA
47804958 CATATCGGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
19 2 0.04
20 52 0.91
21 3 0.05
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (20 bp):
AATTCTTAAAAATTTTAGTA
Found at i:47805023 original size:20 final size:21
Alignment explanation
Indices: 47804971--47805032 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 21
47804961 ATCGGTAAAT
* *
47804971 AATT-ATTAGATATTTTGGTA
1 AATTCATTAGAAATTTTGATA
*
47804991 AATTCA-TATAAATTTTGATA
1 AATTCATTAGAAATTTTGATA
* *
47805011 AA-TCATTAGAAATATTAATA
1 AATTCATTAGAAATTTTGATA
47805031 AA
1 AA
47805033 GTATTAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 3 0.09
20 30 0.88
21 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (21 bp):
AATTCATTAGAAATTTTGATA
Found at i:47805196 original size:20 final size:20
Alignment explanation
Indices: 47805173--47805211 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47805163 AAATAGTTAG
47805173 AAATAATGGAAAATCTTTAT
1 AAATAATGGAAAATCTTTAT
* *
47805193 AAATATTGGTAAATCTTTA
1 AAATAATGGAAAATCTTTA
47805212 ATATTTGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATAATGGAAAATCTTTAT
Found at i:47805269 original size:20 final size:20
Alignment explanation
Indices: 47805246--47805308 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
47805236 TAATAAAAAT
47805246 TTAGATATTTTAGTAAAT-C
1 TTAGATATTTTAGTAAATGC
*
47805265 GTTAGAT-TTTTTGATAAATGC
1 -TTAGATATTTTAG-TAAATGC
* * *
47805286 TTAGAAATATTAGTAAATTC
1 TTAGATATTTTAGTAAATGC
47805306 TTA
1 TTA
47805309 AAAGTTTTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 5 0.14
20 25 0.71
21 5 0.14
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.46
Consensus pattern (20 bp):
TTAGATATTTTAGTAAATGC
Found at i:47805402 original size:19 final size:19
Alignment explanation
Indices: 47805365--47805407 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
47805355 TTTAGTAAAC
*
47805365 CTTAATGATATTTGAAAAT
1 CTTAATGATATTTCAAAAT
* *
47805384 TTTAATGATATTTCTAAAT
1 CTTAATGATATTTCAAAAT
47805403 CTTAA
1 CTTAA
47805408 AAATTTTGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (19 bp):
CTTAATGATATTTCAAAAT
Found at i:47805997 original size:30 final size:31
Alignment explanation
Indices: 47805941--47806007 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
47805931 TAATAATTTA
*
47805941 TATTTTTATATTTTTTAAATAGTTAAATTAT
1 TATTTTTATATTTTTTAAATAATTAAATTAT
*
47805972 TATTTTTTTATTTTTTAAA-AATTAAATTAT
1 TATTTTTATATTTTTTAAATAATTAAATTAT
*
47806002 AATTTT
1 TATTTT
47806008 ATCATTACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 15 0.45
31 18 0.55
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (31 bp):
TATTTTTATATTTTTTAAATAATTAAATTAT
Found at i:47808907 original size:106 final size:106
Alignment explanation
Indices: 47808737--47808937 Score: 366
Period size: 106 Copynumber: 1.9 Consensus size: 106
47808727 AAGCTTTAAG
*
47808737 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47808802 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
* *
47808843 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
47808908 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATCGCCTTATTTA
47808938 GAAAAATTTT
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
106 91 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
Found at i:47822971 original size:7 final size:7
Alignment explanation
Indices: 47822959--47822983 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47822949 TATTAGTTAT
47822959 ATACATA
1 ATACATA
47822966 ATACATA
1 ATACATA
47822973 ATACATA
1 ATACATA
47822980 ATAC
1 ATAC
47822984 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:47823682 original size:106 final size:106
Alignment explanation
Indices: 47823514--47824456 Score: 1850
Period size: 106 Copynumber: 8.9 Consensus size: 106
47823504 AAGCTTTAAG
* *
47823514 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47823579 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
47823620 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47823685 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
47823726 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47823791 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
47823832 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47823897 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
47823938 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47824003 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
47824044 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47824109 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
47824150 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47824215 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
47824256 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
47824321 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
*
47824362 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
*
47824427 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATCGCCTTATTTA
47824457 GAAAAATTTT
Statistics
Matches: 833, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 833 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (106 bp):
AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATCGCCTTATTTAAAAGTTTAAAA
Found at i:47824985 original size:18 final size:19
Alignment explanation
Indices: 47824946--47824992 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
47824936 AAATATGCAT
47824946 AAATATATGTAAGTGTATAA
1 AAAT-TATGTAAGTGTATAA
47824966 AAATTATG-AAGTGTGA-AA
1 AAATTATGTAAGTGT-ATAA
*
47824984 AAAATATGT
1 AAATTATGT
47824993 TTAAATAGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 15 0.62
19 5 0.21
20 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.32
Consensus pattern (19 bp):
AAATTATGTAAGTGTATAA
Found at i:47824986 original size:19 final size:20
Alignment explanation
Indices: 47824946--47824990 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
47824936 AAATATGCAT
*
47824946 AAATATATGTAAGTGTATAA
1 AAATATATGTAAGTGTAAAA
47824966 AAAT-TATG-AAGTGTGAAAA
1 AAATATATGTAAGTGT-AAAA
47824985 AAATAT
1 AAATAT
47824991 GTTTAAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (20 bp):
AAATATATGTAAGTGTAAAA
Found at i:47826717 original size:21 final size:23
Alignment explanation
Indices: 47826678--47826734 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
47826668 GTTTTAAAAT
* *
47826678 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
47826700 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
47826723 TTGGGCTAGGTT
1 TTGGGCTAGGTT
47826735 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:47827958 original size:11 final size:11
Alignment explanation
Indices: 47827944--47828030 Score: 51
Period size: 11 Copynumber: 8.3 Consensus size: 11
47827934 GAGAAATTTA
47827944 AGAGGAAATTG
1 AGAGGAAATTG
*
47827955 AGAGCAAATTG
1 AGAGGAAATTG
**
47827966 AGATTAAA-T-
1 AGAGGAAATTG
* *
47827975 --ATGAATTTG
1 AGAGGAAATTG
47827984 AGA-GAAATTTG
1 AGAGGAAA-TTG
47827995 -GAAGGAAATTG
1 AG-AGGAAATTG
* *
47828006 AGAGCAATTTG
1 AGAGGAAATTG
47828017 AGAGGAAATTG
1 AGAGGAAATTG
47828028 AGA
1 AGA
47828031 AATGATTAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
7 4 0.07
8 1 0.02
10 5 0.09
11 43 0.74
12 5 0.09
ACGTcount: A:0.45, C:0.02, G:0.29, T:0.24
Consensus pattern (11 bp):
AGAGGAAATTG
Found at i:47827958 original size:22 final size:22
Alignment explanation
Indices: 47827933--47828030 Score: 63
Period size: 22 Copynumber: 4.1 Consensus size: 22
47827923 TAGGGATTTA
47827933 AGAGAAATTTAAGAGGAAATTG
1 AGAGAAATTTAAGAGGAAATTG
* * *
47827955 AGAGCAAATTGAGATTAAATATGAATTTG
1 AGAG-AAA-T----TT-AAGAGGAAATTG
*
47827984 AGAGAAATTT-GGAAGGAAATTG
1 AGAGAAATTTAAG-AGGAAATTG
* *
47828006 AGAGCAATTTGAGAGGAAATTG
1 AGAGAAATTTAAGAGGAAATTG
47828028 AGA
1 AGA
47828031 AATGATTAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
22 32 0.55
23 6 0.10
24 1 0.02
27 1 0.02
28 5 0.09
29 13 0.22
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (22 bp):
AGAGAAATTTAAGAGGAAATTG
Found at i:47827975 original size:51 final size:51
Alignment explanation
Indices: 47827920--47828019 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
47827910 AAATAATTAA
*
47827920 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGAATTTAAGAGAAATTTAGA-AGGAAATTGAGAGCAAATTGAGATT
* * * *
47827971 AAATATGAATTTGAGAGAAATTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAGGAATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGA
47828020 GGAAATTGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.26
Consensus pattern (51 bp):
AAATAGGAATTTAAGAGAAATTTAGAAGGAAATTGAGAGCAAATTGAGATT
Found at i:47830951 original size:83 final size:83
Alignment explanation
Indices: 47830795--47830951 Score: 201
Period size: 83 Copynumber: 1.9 Consensus size: 83
47830785 AACCAACCCT
* *
47830795 AAATTCAAACCCCATTGTCTCCATGGTCAAAGGCATTGGTTTGAAGTTGTCTATCATGCTAATAT
1 AAATTCAAACCCCATTGTCTCCATGGTCAAAGGCATTGGTTTGAAGTTCTCTATCATGCTAATAA
*
47830860 TTTTTTTTTAATTTTCAA
66 TTTATTTTTAATTTTCAA
* * * * * *
47830878 AAATTCTAACCCC-TATGTCTCTATGGTCAAATGCATT-GTTTGAAGTTCTGTATTATGCTTATA
1 AAATTCAAACCCCAT-TGTCTCCATGGTCAAAGGCATTGGTTTGAAGTTCTCTATCATGCTAAT-
47830941 AATTTATTTTT
64 AATTTATTTTT
47830952 TTCAAAGTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
82 22 0.35
83 41 0.65
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (83 bp):
AAATTCAAACCCCATTGTCTCCATGGTCAAAGGCATTGGTTTGAAGTTCTCTATCATGCTAATAA
TTTATTTTTAATTTTCAA
Found at i:47832348 original size:58 final size:58
Alignment explanation
Indices: 47832258--47832374 Score: 216
Period size: 58 Copynumber: 2.0 Consensus size: 58
47832248 AAAAGATCGA
*
47832258 AGCCTCGAACAAACTCCTGTCTGTGAAAGAGTTCATATCGTTTACAGTCTTTCGAAGG
1 AGCCTCGAACAAACTCCTGTCTGGGAAAGAGTTCATATCGTTTACAGTCTTTCGAAGG
*
47832316 AGCCTCGAACAAACTCCTGTCTGGGAATGAGTTCATATCGTTTACAGTCTTTCGAAGG
1 AGCCTCGAACAAACTCCTGTCTGGGAAAGAGTTCATATCGTTTACAGTCTTTCGAAGG
47832374 A
1 A
47832375 TCTAGGTCTC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (58 bp):
AGCCTCGAACAAACTCCTGTCTGGGAAAGAGTTCATATCGTTTACAGTCTTTCGAAGG
Found at i:47848507 original size:79 final size:76
Alignment explanation
Indices: 47848360--47848510 Score: 212
Period size: 79 Copynumber: 1.9 Consensus size: 76
47848350 GACTTCAATG
* * * * *
47848360 CTCATAGACTTGATCTCACTATTCATAGGACTGATATTCTGAGCAGGCATCGAGCATGTTAAACA
1 CTCATAGACTTGACCCCACTATTCATAGAACTGATATTCTAAACAGGCATCGAGCATGTTAAACA
47848425 TGTGTATTATT
66 TGTGTATTATT
* *
47848436 CTCATGGACTTGACCCCACTATTCATAGAACTGATGACATTCTAAACAGGCCTCGAGCATGTTAA
1 CTCATAGACTTGACCCCACTATTCATAGAACTGAT---ATTCTAAACAGGCATCGAGCATGTTAA
47848501 ACATGTGTAT
63 ACATGTGTAT
47848511 CAGTCTAGGT
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
76 31 0.48
79 34 0.52
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (76 bp):
CTCATAGACTTGACCCCACTATTCATAGAACTGATATTCTAAACAGGCATCGAGCATGTTAAACA
TGTGTATTATT
Found at i:47850693 original size:21 final size:22
Alignment explanation
Indices: 47850647--47850695 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
47850637 TAATTTATCC
* * *
47850647 TTTCTTTCTTTCTCTTTCTCTT
1 TTTCTTTCATTCTCTGTCTCTG
47850669 TTTCTTTCATT-TCTGTCTCTG
1 TTTCTTTCATTCTCTGTCTCTG
47850690 TTTCTT
1 TTTCTT
47850696 GTTCTATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.02, C:0.24, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTCTTTCATTCTCTGTCTCTG
Found at i:47850695 original size:27 final size:26
Alignment explanation
Indices: 47850646--47850700 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
47850636 CTAATTTATC
* *
47850646 CTTTCTTTCTTTCTCTTTCTCTTTTT
1 CTTTCTTTCTGTCTCTTTCTCTTGTT
47850672 CTTTCATTTCTGTCTCTGTT-TCTTGTT
1 CTTTC-TTTCTGTCTCT-TTCTCTTGTT
47850699 CT
1 CT
47850701 ATTTCTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.20
27 18 0.72
28 2 0.08
ACGTcount: A:0.02, C:0.25, G:0.05, T:0.67
Consensus pattern (26 bp):
CTTTCTTTCTGTCTCTTTCTCTTGTT
Found at i:47851890 original size:17 final size:18
Alignment explanation
Indices: 47851854--47851894 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47851844 ACATAATTTT
*
47851854 CAAAATAATTAAACAGCC
1 CAAAAAAATTAAACAGCC
*
47851872 CAAAAAAATTACA-AGCC
1 CAAAAAAATTAAACAGCC
47851889 CAAAAA
1 CAAAAA
47851895 TAAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.61, C:0.22, G:0.05, T:0.12
Consensus pattern (18 bp):
CAAAAAAATTAAACAGCC
Found at i:47854819 original size:44 final size:44
Alignment explanation
Indices: 47854683--47854908 Score: 108
Period size: 43 Copynumber: 5.1 Consensus size: 44
47854673 AAATAAAACT
* *
47854683 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATT
1 TTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGATC
** * * * * ** *
47854727 TTGCCTTCC-TGCGTTAACAGCGAAGCAGGTCGAAA-A-CCCA-AGCC
1 TTGCC-TCCAT-CGTTTGCAGTGGAGCTGGT-TAAAGATAACAGA-TC
*
47854771 TTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGATC
1 TTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGATC
* * * * ** ** *
47854815 TTGCCCTCCTAT-G-TCGACAGTGAAGCAGATCGAAGA-CCCA-AGCC
1 TTG-CCTCC-ATCGTTTG-CAGTGGAGCTGGTTAAAGATAACAGA-TC
* * *
47854859 TTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATT
1 TTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGATC
47854903 TTGCCT
1 TTGCCT
47854909 TCCTTTGGTT
Statistics
Matches: 125, Mismatches: 41, Indels: 32
0.63 0.21 0.16
Matches are distributed among these distances:
42 5 0.04
43 39 0.31
44 37 0.30
45 39 0.31
46 5 0.04
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (44 bp):
TTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAACAGATC
Found at i:47854840 original size:88 final size:88
Alignment explanation
Indices: 47854683--47854912 Score: 352
Period size: 88 Copynumber: 2.6 Consensus size: 88
47854673 AAATAAAACT
* *
47854683 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATTTTGCCTTCCTGCGTTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATTTTGCCTTCCTACGTCAACAGC
*
47854748 GAAGCAGGTCGAAAACCCAAGCC
66 GAAGCAGATCGAAAACCCAAGCC
* * * * * * *
47854771 TTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTATGTCGACAGT
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATTTTGCCTTCCTACGTCAACAGC
*
47854836 GAAGCAGATCGAAGACCCAAGCC
66 GAAGCAGATCGAAAACCCAAGCC
*
47854859 TTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATTTTGCCTTCCT
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATTTTGCCTTCCT
47854913 TTGGTTAAAG
Statistics
Matches: 126, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 126 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (88 bp):
TTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGATTTTGCCTTCCTACGTCAACAGC
GAAGCAGATCGAAAACCCAAGCC
Found at i:47854939 original size:29 final size:30
Alignment explanation
Indices: 47854884--47854941 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
47854874 GCAGTGGAGC
* *
47854884 TGGTTAAAGATAACAGATTTTGCCTTCCTT
1 TGGTTAAAGATAACAGATCTTGACTTCCTT
*
47854914 TGGTTAAAGAT-GCAGATCTTGACTTCCT
1 TGGTTAAAGATAACAGATCTTGACTTCCT
47854942 GTAGATTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (30 bp):
TGGTTAAAGATAACAGATCTTGACTTCCTT
Found at i:47855070 original size:88 final size:88
Alignment explanation
Indices: 47854951--47855328 Score: 524
Period size: 88 Copynumber: 4.3 Consensus size: 88
47854941 TGTAGATTAT
* *
47854951 CGAAGCAGATCG-AAAGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAG
1 CGAAGCAGATCGAAAACCCAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAG
* * * *
47855015 ATTTTGCCTTCCTGCGTTAACAG
66 ATCTTGCCCTCCTACGTCAACAG
* * *
47855038 CGAAGCAGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAG
1 CGAAGCAGATCGAAAACCCAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAG
* *
47855103 ATCTTGCCCTCCTATGTCGACAG
66 ATCTTGCCCTCCTACGTCAACAG
* * *
47855126 TGAAGCAGATCGAAGACCCAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAG
1 CGAAGCAGATCGAAAACCCAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAG
* * * *
47855191 ATTTTGCCTTCCTGCGTTAACAG
66 ATCTTGCCCTCCTACGTCAACAG
* * *
47855214 CGAAGCAGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGGTTAAAGATAGCAG
1 CGAAGCAGATCGAAAACCCAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAG
* *
47855279 ATCTTGCCCTCCTATGTCGACAG
66 ATCTTGCCCTCCTACGTCAACAG
* *
47855302 TGAAGCAGATCGAAGACCCAAGCCTTG
1 CGAAGCAGATCGAAAACCCAAGCCTTG
47855329 TCGAAGATTA
Statistics
Matches: 252, Mismatches: 38, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
87 11 0.04
88 241 0.96
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (88 bp):
CGAAGCAGATCGAAAACCCAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAG
ATCTTGCCCTCCTACGTCAACAG
Found at i:47855263 original size:176 final size:176
Alignment explanation
Indices: 47854952--47855330 Score: 724
Period size: 176 Copynumber: 2.2 Consensus size: 176
47854942 GTAGATTATC
* * *
47854952 GAAGCAGATCGAA-AGCAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGA
1 GAAGCAGATCGAAGACCCAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGA
47855016 TTTTGCCTTCCTGCGTTAACAGCGAAGCAGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAG
66 TTTTGCCTTCCTGCGTTAACAGCGAAGCAGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAG
47855081 TGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTATGTCGACAGT
131 TGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTATGTCGACAGT
47855127 GAAGCAGATCGAAGACCCAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGA
1 GAAGCAGATCGAAGACCCAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGA
47855192 TTTTGCCTTCCTGCGTTAACAGCGAAGCAGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAG
66 TTTTGCCTTCCTGCGTTAACAGCGAAGCAGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAG
47855257 TGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTATGTCGACAGT
131 TGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTATGTCGACAGT
47855303 GAAGCAGATCGAAGACCCAAGCCTTGTC
1 GAAGCAGATCGAAGACCCAAGCCTTGTC
47855331 GAAGATTACA
Statistics
Matches: 200, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
175 13 0.06
176 187 0.94
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.23
Consensus pattern (176 bp):
GAAGCAGATCGAAGACCCAAGCCTTGTCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAACAGA
TTTTGCCTTCCTGCGTTAACAGCGAAGCAGGTCGAAAACCCAAGCCTTGCCTCCATCGTTTGCAG
TGGAGCTGGTTAAAGATAGCAGATCTTGCCCTCCTATGTCGACAGT
Found at i:47855563 original size:44 final size:44
Alignment explanation
Indices: 47855514--47855628 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 44
47855504 ATCGCATCGG
*
47855514 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAGA-AAACAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGA-ACAAACAA
* * ** * *
47855558 GTCTTATCCCCCTAAAGTCACAGTGGGGCAGACCGAACAAGCAA
1 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAACAAACAA
* *
47855602 ATCTTATCTCCCTGAGGTTGCAGTGGA
1 GTCTTATCTCCCTGAAGTTGCAGTGGA
47855629 ACAACTTGAA
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (44 bp):
GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCGAACAAACAA
Found at i:47858965 original size:29 final size:30
Alignment explanation
Indices: 47858912--47858988 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
47858902 GTGATAAAAA
* **
47858912 AATTAATTAAATTTTTAATTCAAAATT-GC
1 AATTAATTAAACTTTTAATAAAAAATTAGC
*
47858941 AATTAATTAAA-TTTTAATAAAAAAATTAGT
1 AATTAATTAAACTTTTAAT-AAAAAATTAGC
*
47858971 AATAAATTAAACTTTTAA
1 AATTAATTAAACTTTTAA
47858989 AATATAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 7 0.17
29 17 0.41
30 11 0.27
31 6 0.15
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.42
Consensus pattern (30 bp):
AATTAATTAAACTTTTAATAAAAAATTAGC
Found at i:47859345 original size:19 final size:18
Alignment explanation
Indices: 47859321--47859370 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
47859311 GAAATTATTG
47859321 AAAATTATAAAAAAATATA
1 AAAATTATAAAAAAATA-A
**
47859340 AAAATTATTAAAACCATAA
1 AAAATTA-TAAAAAAATAA
*
47859359 AAAATCATAAAA
1 AAAATTATAAAA
47859371 TTTATTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 5 0.19
19 14 0.52
20 8 0.30
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATTATAAAAAAATAA
Found at i:47859352 original size:28 final size:28
Alignment explanation
Indices: 47859312--47859379 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
47859302 AAACTCTTAG
**
47859312 AAATTATTGAAAATTATAAAAAAAT-ATAA
1 AAATTATT-AAAACCAT-AAAAAATCATAA
47859341 AAATTATTAAAACCATAAAAAATCATAA
1 AAATTATTAAAACCATAAAAAATCATAA
*
47859369 AATTTATTAAA
1 AAATTATTAAA
47859380 GTTTTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.20
28 20 0.57
29 8 0.23
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.31
Consensus pattern (28 bp):
AAATTATTAAAACCATAAAAAATCATAA
Found at i:47859869 original size:8 final size:8
Alignment explanation
Indices: 47859826--47859853 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
47859816 TAAAATAAAA
47859826 TTTTTTAT
1 TTTTTTAT
47859834 TTTTTTAT
1 TTTTTTAT
47859842 TTTTTTAT
1 TTTTTTAT
47859850 TTTT
1 TTTT
47859854 AAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTAT
Found at i:47860324 original size:16 final size:20
Alignment explanation
Indices: 47860291--47860330 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
47860281 TTTTTACCAT
47860291 TTTTATTATTTGTATAAT-A
1 TTTTATTATTTGTATAATAA
47860310 TTTTATT-TTT-T-TAATAA
1 TTTTATTATTTGTATAATAA
47860327 TTTT
1 TTTT
47860331 GTATAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 4 0.20
17 6 0.30
18 3 0.15
19 7 0.35
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (20 bp):
TTTTATTATTTGTATAATAA
Found at i:47868435 original size:37 final size:39
Alignment explanation
Indices: 47868394--47868477 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 39
47868384 TGAGTATACG
*
47868394 TATATATATTA-AA-CAAATTATATG-TAA-AATATGTACA
1 TATATATATTACAAGC-AATTATATGATAACAATAAG-ACA
*
47868431 TATATATA-TACAAGCACTTATATGATAACAATAAGACA
1 TATATATATTACAAGCAATTATATGATAACAATAAGACA
47868469 TATATATAT
1 TATATATAT
47868478 ATTTAAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
36 2 0.05
37 18 0.45
38 15 0.38
39 5 0.12
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (39 bp):
TATATATATTACAAGCAATTATATGATAACAATAAGACA
Found at i:47869736 original size:101 final size:101
Alignment explanation
Indices: 47869561--47869761 Score: 375
Period size: 101 Copynumber: 2.0 Consensus size: 101
47869551 CTGAGGCGTG
*
47869561 CGAGTGGCGACCGGTCAGAGGCGTGCATGCGTGAGGGGGGCAGACGAGGCTGAGCGGCGCGCCCT
1 CGAGTGGCGACCGGTCAGAGGCGTGCATGCGTGAGGGGGACAGACGAGGCTGAGCGGCGCGCCCT
47869626 AGGCATGCTGCGCCTAGGGTTTTCTGCCGCAAACAA
66 AGGCATGCTGCGCCTAGGGTTTTCTGCCGCAAACAA
* *
47869662 CGAGTGGCGACCGGTCAGAGGCGTGTATGCGTGAGGGGTACAGACGAGGCTGAGCGGCGCGCCCT
1 CGAGTGGCGACCGGTCAGAGGCGTGCATGCGTGAGGGGGACAGACGAGGCTGAGCGGCGCGCCCT
47869727 AGGCATGCTGCGCCTAGGGTTTTCTGCCGCAAACA
66 AGGCATGCTGCGCCTAGGGTTTTCTGCCGCAAACA
47869762 TTTTTTTATT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.18, C:0.26, G:0.40, T:0.16
Consensus pattern (101 bp):
CGAGTGGCGACCGGTCAGAGGCGTGCATGCGTGAGGGGGACAGACGAGGCTGAGCGGCGCGCCCT
AGGCATGCTGCGCCTAGGGTTTTCTGCCGCAAACAA
Found at i:47870504 original size:44 final size:44
Alignment explanation
Indices: 47870453--47870544 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
47870443 CTGAAGTATC
*
47870453 AGTAACAGTACGAGACACA-AAGTGCCTCATCGACACAAAGTCGA
1 AGTAACAGTACGACAC-CATAAGTGCCTCATCGACACAAAGTCGA
* * *
47870497 AGTAACAGTACGACACCATTAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACCATAAGTGCCTCATCGACACAAAGTCGA
47870541 AGTA
1 AGTA
47870545 TCCCTGAACA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 2 0.05
44 41 0.95
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (44 bp):
AGTAACAGTACGACACCATAAGTGCCTCATCGACACAAAGTCGA
Found at i:47880978 original size:8 final size:8
Alignment explanation
Indices: 47880967--47881010 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
47880957 CTTTTATGTT
47880967 TTATTATA
1 TTATTATA
47880975 TTATT-TAA
1 TTATTAT-A
47880983 TTATTATA
1 TTATTATA
*
47880991 TTAATATA
1 TTATTATA
47880999 TTATTATA
1 TTATTATA
47881007 TTAT
1 TTAT
47881011 ATAGTTAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 1 0.03
8 30 0.94
9 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:47880986 original size:16 final size:17
Alignment explanation
Indices: 47880967--47881013 Score: 71
Period size: 16 Copynumber: 2.9 Consensus size: 17
47880957 CTTTTATGTT
*
47880967 TTATTATATTATTTA-A
1 TTATTATATTATATATA
47880983 TTATTATATTA-ATATA
1 TTATTATATTATATATA
47880999 TTATTATATTATATA
1 TTATTATATTATATA
47881014 GTTAAGTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 2 0.07
16 23 0.82
17 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATTATATTATATATA
Found at i:47881009 original size:24 final size:24
Alignment explanation
Indices: 47880971--47881018 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
47880961 TATGTTTTAT
47880971 TATATTATTTAATTATTATA-TTAA
1 TATATTATTTAATTA-TATAGTTAA
47880995 TATATTA-TTATATTATATAGTTAA
1 TATATTATTTA-ATTATATAGTTAA
47881019 GTCTTAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TATATTATTTAATTATATAGTTAA
Found at i:47895975 original size:21 final size:21
Alignment explanation
Indices: 47895941--47895980 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47895931 AGATGAAAAT
*
47895941 AAAAACTAAACCTCGAAACAC
1 AAAAACTAAACCTCAAAACAC
47895962 AAAAAC-AAACCCTCAAAAC
1 AAAAACTAAA-CCTCAAAAC
47895981 GTAAACACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.60, C:0.30, G:0.03, T:0.07
Consensus pattern (21 bp):
AAAAACTAAACCTCAAAACAC
Found at i:47897499 original size:45 final size:45
Alignment explanation
Indices: 47897433--47897522 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
47897423 GAAAAATTTA
* *
47897433 GTAAAAATATCCATCATCTGATCTCTGATTTGCAATAAATCAGTT
1 GTAAAAATATCCATCACCTGATCTCTGATTTGCAATAAACCAGTT
** *
47897478 GTAAAAATATCTGTCACCTGATCTTTGATTTGCAATAAACCAGTT
1 GTAAAAATATCCATCACCTGATCTCTGATTTGCAATAAACCAGTT
47897523 TCTTCAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (45 bp):
GTAAAAATATCCATCACCTGATCTCTGATTTGCAATAAACCAGTT
Found at i:47901961 original size:19 final size:18
Alignment explanation
Indices: 47901898--47901961 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
47901888 GTTCGGAAAA
*
47901898 TTTTATAAATTTTTAATT
1 TTTTATAATTTTTTAATT
* * *
47901916 AGTCTATAATTTTTTTATT
1 -TTTTATAATTTTTTAATT
*
47901935 TTAATATAATTTTTATAATT
1 TT-TTATAATTTTT-TAATT
47901955 TTTTATA
1 TTTTATA
47901962 GAGAAAAAAG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 1 0.03
19 28 0.80
20 6 0.17
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTATAATTTTTTAATT
Found at i:47921592 original size:16 final size:15
Alignment explanation
Indices: 47921561--47921600 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
47921551 TTTCTTACAT
47921561 TCTTTTTCTTTTTCA
1 TCTTTTTCTTTTTCA
47921576 TCTTTTTC-TTTTC-
1 TCTTTTTCTTTTTCA
*
47921589 TCATTTTCTTTT
1 TCTTTTTCTTTT
47921601 CACTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 7 0.30
14 8 0.35
15 8 0.35
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTTTTTCTTTTTCA
Found at i:47921597 original size:13 final size:14
Alignment explanation
Indices: 47921564--47921602 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
47921554 CTTACATTCT
*
47921564 TTTTCTTTTTCATCT
1 TTTTC-TTTTCATCA
47921579 TTTTCTTTTC-TCA
1 TTTTCTTTTCATCA
47921592 TTTTCTTTTCA
1 TTTTCTTTTCA
47921603 CTTTCTTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 5 0.23
15 5 0.23
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTCATCA
Found at i:47921668 original size:18 final size:17
Alignment explanation
Indices: 47921625--47921668 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
47921615 GTTTTTCCTC
47921625 TCTTTTTCTCATTTTTAT
1 TCTTTTT-TCATTTTTAT
47921643 T-TTCTTTTACATTTTTAT
1 TCTT-TTTT-CATTTTTAT
47921661 TCTTTTTT
1 TCTTTTTT
47921669 TTTCTCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 3 0.13
18 18 0.78
19 2 0.09
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTTTTTCATTTTTAT
Found at i:47924148 original size:74 final size:74
Alignment explanation
Indices: 47924036--47924185 Score: 264
Period size: 74 Copynumber: 2.0 Consensus size: 74
47924026 TAAGTATAAA
* * *
47924036 GATAGGTAATGGAAATAGGTTCAAAATTGGCTAAGTATAAGTTGATTAGGTTCGGCTAACAAAGA
1 GATAGGTAATAGAAATAGGTTCAAAATTGGATAAGTATAAGTTGATTAGGTTCGACTAACAAAGA
47924101 AAGTAAATT
66 AAGTAAATT
*
47924110 GATAGGTAATAGAAATAGGTTTAAAATTGGATAAGTATAAGTTGATTAGGTTCGACTAACAAAGA
1 GATAGGTAATAGAAATAGGTTCAAAATTGGATAAGTATAAGTTGATTAGGTTCGACTAACAAAGA
47924175 AAGTAAATT
66 AAGTAAATT
47924184 GA
1 GA
47924186 ATAGTTTAGA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.43, C:0.05, G:0.23, T:0.29
Consensus pattern (74 bp):
GATAGGTAATAGAAATAGGTTCAAAATTGGATAAGTATAAGTTGATTAGGTTCGACTAACAAAGA
AAGTAAATT
Found at i:47925452 original size:10 final size:10
Alignment explanation
Indices: 47925425--47925454 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
47925415 AGAAATAAAG
*
47925425 ATGAGCTCAA
1 ATGAGCTGAA
47925435 ATGAGCTGAA
1 ATGAGCTGAA
47925445 ATGAGCTGAA
1 ATGAGCTGAA
47925455 CTAAGCTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (10 bp):
ATGAGCTGAA
Found at i:47933600 original size:29 final size:29
Alignment explanation
Indices: 47933558--47933616 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
47933548 TCAAGATGAG
47933558 GAATTTAATGAAATGATTACATTATCTAT
1 GAATTTAATGAAATGATTACATTATCTAT
*
47933587 GAATTTAATGAAATGATTACATTCTCTAT
1 GAATTTAATGAAATGATTACATTATCTAT
47933616 G
1 G
47933617 TATTAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (29 bp):
GAATTTAATGAAATGATTACATTATCTAT
Found at i:47933629 original size:29 final size:29
Alignment explanation
Indices: 47933558--47933629 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
47933548 TCAAGATGAG
* *
47933558 GAATTTAATGAAATGATTACATTATCTAT
1 GAATTAAATAAAATGATTACATTATCTAT
* * *
47933587 GAATTTAATGAAATGATTACATTCTCTAT
1 GAATTAAATAAAATGATTACATTATCTAT
*
47933616 GTATTAAATAAAAT
1 GAATTAAATAAAAT
47933630 ACTATTAAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (29 bp):
GAATTAAATAAAATGATTACATTATCTAT
Found at i:47934981 original size:18 final size:17
Alignment explanation
Indices: 47934931--47934985 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
47934921 TTTCTTAGAA
*
47934931 TTTTGT-ATCTCGTAACT
1 TTTTGTAATCTCATAA-T
*
47934948 TTTTGTATTC-CATAAT
1 TTTTGTAATCTCATAAT
47934964 TATTTGTAATCTCATAAT
1 T-TTTGTAATCTCATAAT
47934982 TTTT
1 TTTT
47934986 AGTATGATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 2 0.06
17 21 0.66
18 9 0.28
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (17 bp):
TTTTGTAATCTCATAAT
Found at i:47936168 original size:49 final size:48
Alignment explanation
Indices: 47936102--47936196 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
47936092 TGTGACACAC
* * *
47936102 CCGTGTGAGGTGGCTTAGGACGTGTTTAGAGTCTGCTAAATAGACACGG
1 CCGTGTGAGGTGACTTAGGACGTG-TTACAATCTGCTAAATAGACACGG
* *
47936151 CCGTGTG-GTGTGACTTAGGCCGTGTTACAATCTGTTAAATAGACAC
1 CCGTGTGAG-GTGACTTAGGACGTGTTACAATCTGCTAAATAGACAC
47936197 AGGTGTGTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
48 20 0.50
49 20 0.50
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (48 bp):
CCGTGTGAGGTGACTTAGGACGTGTTACAATCTGCTAAATAGACACGG
Found at i:47939934 original size:71 final size:71
Alignment explanation
Indices: 47939818--47939959 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
47939808 ATTAATCGTT
47939818 CTTGAAACTAACTATTATCGCGATGTAGGCAAGTGTACGTATCGAATAGTAGGATAGTTTTAGCA
1 CTTGAAACTAACTATTATCGCGATGTAGGCAAGTGTACGTATCGAATAGTAGGATAGTTTTAGCA
47939883 AGACCG
66 AGACCG
47939889 CTTGAAACTAACTATTATCGCGATGTAGGCAAGTGTACGTATCGAATAGTAGGATAGTTTTAGCA
1 CTTGAAACTAACTATTATCGCGATGTAGGCAAGTGTACGTATCGAATAGTAGGATAGTTTTAGCA
47939954 AGACCG
66 AGACCG
47939960 GATTGTCGAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.28
Consensus pattern (71 bp):
CTTGAAACTAACTATTATCGCGATGTAGGCAAGTGTACGTATCGAATAGTAGGATAGTTTTAGCA
AGACCG
Found at i:47941464 original size:20 final size:19
Alignment explanation
Indices: 47941441--47941488 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
47941431 ACTACTTCAC
47941441 AAATATAT-ATACATATACTA
1 AAATATATAATA-ATATA-TA
47941461 AAATATACATAATAATATATA
1 AAATAT--ATAATAATATATA
47941482 AAATATA
1 AAATATA
47941489 ATATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.04
20 6 0.24
21 8 0.32
22 7 0.28
23 3 0.12
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATATATAATAATATATA
Found at i:47941558 original size:28 final size:30
Alignment explanation
Indices: 47941522--47941593 Score: 92
Period size: 32 Copynumber: 2.4 Consensus size: 30
47941512 TATATGAAAA
*
47941522 ATATATATATAATATAATATTAATAAAAATAC
1 ATATATATATAATA-CATATTAA-AAAAATAC
* *
47941554 ATATATATGTAATACATATTAAAAGAATAC
1 ATATATATATAATACATATTAAAAAAATAC
47941584 ATATA-ATATA
1 ATATATATATA
47941594 CATATATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 4 0.11
30 12 0.33
31 7 0.19
32 13 0.36
ACGTcount: A:0.57, C:0.04, G:0.03, T:0.36
Consensus pattern (30 bp):
ATATATATATAATACATATTAAAAAAATAC
Found at i:47941560 original size:30 final size:29
Alignment explanation
Indices: 47941524--47941599 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 29
47941514 TATGAAAAAT
47941524 ATATATATAATATAATATTAATAAAAATAC
1 ATATATATAATATAATATTAA-AAAAATAC
* *
47941554 ATATATATGTAATA-CATATTAAAAGAATAC
1 ATATATA--TAATATAATATTAAAAAAATAC
47941584 ATATAATATACATATA
1 ATAT-ATATA-ATATA
47941600 TTTCAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
29 2 0.05
30 21 0.55
31 10 0.26
32 5 0.13
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.36
Consensus pattern (29 bp):
ATATATATAATATAATATTAAAAAAATAC
Found at i:47941594 original size:26 final size:27
Alignment explanation
Indices: 47941519--47941598 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 27
47941509 TGATATATGA
*
47941519 AAAATATATATATAATATA-ATATTAAT
1 AAAA-ATACATATAATATACATATTAAT
47941546 AAAAATACATATATATGTAATACATATTAA-
1 AAAAATACATATA-A--T-ATACATATTAAT
*
47941576 AAGAATACATATAATATACATAT
1 AAAAATACATATAATATACATAT
47941599 ATTTCAAAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
26 16 0.35
27 6 0.13
29 2 0.04
30 15 0.33
31 7 0.15
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (27 bp):
AAAAATACATATAATATACATATTAAT
Found at i:47949917 original size:19 final size:21
Alignment explanation
Indices: 47949875--47949917 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
47949865 TTACTCAAAG
47949875 AAAGCCGATTGATCCATCTCA
1 AAAGCCGATTGATCCATCTCA
47949896 AAAGCCGGATT-ATCC-T-TCA
1 AAAGCC-GATTGATCCATCTCA
47949915 AAA
1 AAA
47949918 CTGAAGATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.29
20 1 0.05
21 10 0.48
22 4 0.19
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAGCCGATTGATCCATCTCA
Found at i:47953489 original size:22 final size:21
Alignment explanation
Indices: 47953451--47953494 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
47953441 CTTTTCTCTC
*
47953451 TATTCTCTTGTTATTTACTGT
1 TATTCTCTTGTTATTTAATGT
47953472 TATT-TCTTGTTTATTTTAATGT
1 TATTCTCTTG-TTA-TTTAATGT
47953494 T
1 T
47953495 TTTTATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
22 8 0.40
ACGTcount: A:0.16, C:0.09, G:0.09, T:0.66
Consensus pattern (21 bp):
TATTCTCTTGTTATTTAATGT
Found at i:47955065 original size:14 final size:15
Alignment explanation
Indices: 47955046--47955075 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
47955036 TTTATTTATT
47955046 ATTTTTAT-GTTTTA
1 ATTTTTATCGTTTTA
47955060 ATTTTTATCGTTTTA
1 ATTTTTATCGTTTTA
47955075 A
1 A
47955076 AACTATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (15 bp):
ATTTTTATCGTTTTA
Found at i:47964726 original size:40 final size:41
Alignment explanation
Indices: 47964674--47964765 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
47964664 TAATATTCTG
* *
47964674 ATCTGCATTCTATATTTGATAGGACTGAGGCCCTA-ATATAT
1 ATCTG-ATTCTATATCTGATAGGACTAAGGCCCTATATATAT
* * *
47964715 TTCTGATTCTATATCTGATTGGGCTAAGGCCCTATTATATAT
1 ATCTGATTCTATATCTGATAGGACTAAGGCCCTA-TATATAT
47964757 ATCTGATTC
1 ATCTGATTC
47964766 GGCATCCGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
40 25 0.58
41 4 0.09
42 14 0.33
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (41 bp):
ATCTGATTCTATATCTGATAGGACTAAGGCCCTATATATAT
Found at i:47969205 original size:20 final size:20
Alignment explanation
Indices: 47969180--47969218 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
47969170 TAATTTTTAA
47969180 ATATAAAATTTTCATCAATT
1 ATATAAAATTTTCATCAATT
47969200 ATATAAAATTTTCATCAAT
1 ATATAAAATTTTCATCAAT
47969219 AAACTCCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATAAAATTTTCATCAATT
Found at i:47975616 original size:18 final size:18
Alignment explanation
Indices: 47975593--47975630 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
47975583 AATATATATT
47975593 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
47975611 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
47975629 AA
1 AA
47975631 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:47975623 original size:13 final size:13
Alignment explanation
Indices: 47975607--47975631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47975597 CAAGTACCCA
47975607 ACCCAACCCAATT
1 ACCCAACCCAATT
47975620 ACCCAACCCAAT
1 ACCCAACCCAAT
47975632 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:47975711 original size:18 final size:18
Alignment explanation
Indices: 47975688--47975756 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
47975678 TTTATACAAA
47975688 TAATTCGGTTAATTTAGT
1 TAATTCGGTTAATTTAGT
** *
47975706 TAATTCAGG-TAATTCGGG
1 TAATTC-GGTTAATTTAGT
*
47975724 TAATTCGGTTAA-TTCGAT
1 TAATTCGGTTAATTTAG-T
47975742 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
47975757 TATACTTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
17 4 0.10
18 33 0.80
19 4 0.10
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (18 bp):
TAATTCGGTTAATTTAGT
Found at i:47975727 original size:27 final size:27
Alignment explanation
Indices: 47975688--47975756 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
47975678 TTTATACAAA
47975688 TAATTCGGTTAATTTAGTTAATTC-AGG
1 TAATTCGGTTAATTTAGTTAATTCGA-G
* ** *
47975715 TAATTCGGGTAATTCGGTTAATTCGAT
1 TAATTCGGTTAATTTAGTTAATTCGAG
47975742 TAATTCGGTTAATTT
1 TAATTCGGTTAATTT
47975757 TATACTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.45
Consensus pattern (27 bp):
TAATTCGGTTAATTTAGTTAATTCGAG
Found at i:47978799 original size:20 final size:20
Alignment explanation
Indices: 47978774--47978811 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
47978764 ATGAGGTTTA
47978774 AAAAATGGGTTAAAAACCAC
1 AAAAATGGGTTAAAAACCAC
47978794 AAAAATGGGTTAAAAACC
1 AAAAATGGGTTAAAAACC
47978812 CCATTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.13, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAAATGGGTTAAAAACCAC
Found at i:47991826 original size:16 final size:16
Alignment explanation
Indices: 47991793--47991826 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47991783 TACCATTGTT
* *
47991793 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
47991809 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
47991825 AA
1 AA
47991827 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:47994651 original size:21 final size:21
Alignment explanation
Indices: 47994625--47994665 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47994615 AGACGAGCAA
* *
47994625 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
47994646 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
47994666 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:47996604 original size:16 final size:16
Alignment explanation
Indices: 47996571--47996604 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47996561 GGAGATTGTT
* *
47996571 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
47996587 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
47996603 AA
1 AA
47996605 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:47999293 original size:46 final size:46
Alignment explanation
Indices: 47999242--47999379 Score: 267
Period size: 46 Copynumber: 3.0 Consensus size: 46
47999232 AAATAATTTC
47999242 TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
1 TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
47999288 TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
1 TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
*
47999334 TATATAAACTCAATTTCGAAAGTTTTTGCTAAAAAGCAACAAACCA
1 TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
47999380 AAAATATTTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 91 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (46 bp):
TATATAAACTCAATTTAGAAAGTTTTTGCTAAAAAGCAACAAACCA
Found at i:48000551 original size:31 final size:33
Alignment explanation
Indices: 48000516--48000594 Score: 92
Period size: 34 Copynumber: 2.5 Consensus size: 33
48000506 ATATTTTAAC
*
48000516 ATTTATATTACAA-AAA-ATTTATTATTAATAT
1 ATTTATATTACAATAAATATTTATTATTAAAAT
**
48000547 ATTTATAATTGTAATAAATATTTATTATTAAAAT
1 ATTTAT-ATTACAATAAATATTTATTATTAAAAT
*
48000581 ATTAATATTA-AATA
1 ATTTATATTACAATA
48000595 TTTTCAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 6 0.15
32 9 0.22
33 6 0.15
34 19 0.47
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
ATTTATATTACAATAAATATTTATTATTAAAAT
Found at i:48000552 original size:15 final size:15
Alignment explanation
Indices: 48000532--48000597 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 15
48000522 ATTACAAAAA
48000532 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
48000547 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
48000566 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
48000581 A-TTAATATTAA-AT
1 ATTTATTATTAATAT
48000594 ATTT
1 ATTT
48000598 TCAATAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.07
14 11 0.26
15 10 0.24
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:48000647 original size:16 final size:16
Alignment explanation
Indices: 48000616--48000652 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
48000606 ATGTGAATAA
48000616 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
48000632 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
48000648 TATTA
1 TATTA
48000653 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:48000704 original size:22 final size:22
Alignment explanation
Indices: 48000664--48000719 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
48000654 AATAAAATTG
*
48000664 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
48000684 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
48000706 TATTAATAATTTAT
1 AAATAATAAATTAT
48000720 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Done.